RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 034020
(106 letters)
>gnl|CDD|235532 PRK05610, rpsQ, 30S ribosomal protein S17; Reviewed.
Length = 84
Score = 118 bits (298), Expect = 2e-36
Identities = 40/78 (51%), Positives = 56/78 (71%)
Query: 2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
K++ G VVS+KM K++VV V+R H +Y + VKR+ K+ AHDENN+ IGD VR+ +R
Sbjct: 7 KTLQGRVVSDKMDKTIVVLVERRVKHPLYGKIVKRSKKYHAHDENNEAKIGDVVRIMETR 66
Query: 62 PLSKHKHWAVAEILKKAR 79
PLSK K W + EI++KA
Sbjct: 67 PLSKTKRWRLVEIVEKAV 84
>gnl|CDD|213841 TIGR03635, S17_bact, 30S ribosomal protein S17. This model
describes the bacterial ribosomal small subunit protein
S17, while excluding cytosolic eukaryotic homologs and
archaeal homologs. The model finds many, but not,
chloroplast and mitochondrial counterparts to bacterial
S17 [Protein synthesis, Ribosomal proteins: synthesis
and modification].
Length = 71
Score = 107 bits (269), Expect = 4e-32
Identities = 37/70 (52%), Positives = 52/70 (74%)
Query: 2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
K++ G+VVS+KM K++VV V+R H +Y + VKRT K+ AHDENN+C +GD VR+ +R
Sbjct: 2 KTLQGVVVSDKMDKTIVVLVERRVKHPLYGKIVKRTKKYHAHDENNECKVGDVVRIIETR 61
Query: 62 PLSKHKHWAV 71
PLSK K W +
Sbjct: 62 PLSKTKRWRL 71
>gnl|CDD|223264 COG0186, RpsQ, Ribosomal protein S17 [Translation, ribosomal
structure and biogenesis].
Length = 87
Score = 107 bits (269), Expect = 5e-32
Identities = 38/79 (48%), Positives = 56/79 (70%)
Query: 2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSR 61
+ + G+VVS+KM K+VVV V+R +H Y +YV+R+ K+ AHDE N+ +GD VR+ +R
Sbjct: 9 RVLEGVVVSDKMDKTVVVEVERKVYHPKYGKYVRRSKKYHAHDECNEAKVGDIVRIAETR 68
Query: 62 PLSKHKHWAVAEILKKARI 80
PLSK K + V EI++KA
Sbjct: 69 PLSKTKRFVVVEIVEKAVE 87
>gnl|CDD|177064 CHL00142, rps17, ribosomal protein S17; Validated.
Length = 84
Score = 93.6 bits (233), Expect = 9e-27
Identities = 38/78 (48%), Positives = 58/78 (74%)
Query: 1 MKSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPS 60
+K +G+VVSNKM K++VVAV+ + H +Y + + +T K++ HDE N+CNIGD+V ++ +
Sbjct: 3 VKEKIGIVVSNKMNKTIVVAVENRYKHPIYGKIITKTKKYLVHDEENECNIGDQVLIEET 62
Query: 61 RPLSKHKHWAVAEILKKA 78
RPLSK K W + EIL K+
Sbjct: 63 RPLSKTKRWILKEILSKS 80
>gnl|CDD|109426 pfam00366, Ribosomal_S17, Ribosomal protein S17.
Length = 69
Score = 83.2 bits (206), Expect = 1e-22
Identities = 32/69 (46%), Positives = 45/69 (65%)
Query: 6 GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSK 65
G+VVS+KM+K++VV V+RL H Y +Y KRT K+ AHD +GD V++ RPLSK
Sbjct: 1 GVVVSDKMEKTIVVRVERLVPHPKYGKYEKRTKKYPAHDPPCFRKVGDVVKIGECRPLSK 60
Query: 66 HKHWAVAEI 74
K + V +
Sbjct: 61 TKRFRVVRV 69
>gnl|CDD|236296 PRK08572, rps17p, 30S ribosomal protein S17P; Reviewed.
Length = 108
Score = 68.0 bits (167), Expect = 2e-16
Identities = 33/80 (41%), Positives = 47/80 (58%), Gaps = 5/80 (6%)
Query: 2 KSVVGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQC---NIGDRVRLD 58
+ + G VVS+KM K+VVV + L + Y RY KR S+ AH N C +GD+V++
Sbjct: 30 QVLEGTVVSDKMHKTVVVEREYLHYVPKYERYEKRRSRIHAH--NPPCIDAKVGDKVKIA 87
Query: 59 PSRPLSKHKHWAVAEILKKA 78
RPLSK K + V E ++A
Sbjct: 88 ECRPLSKTKSFVVVEKKERA 107
>gnl|CDD|132669 TIGR03630, arch_S17P, archaeal ribosomal protein S17P. This model
describes exclusively the archaeal ribosomal protein
S17P. It excludes the homologous ribosomal protein S17
from bacteria, and is not intended for use on eukaryotic
sequences, where some instances of ribosomal proteins
S11 score above the trusted cutoff [Protein synthesis,
Ribosomal proteins: synthesis and modification].
Length = 102
Score = 63.5 bits (155), Expect = 1e-14
Identities = 31/74 (41%), Positives = 43/74 (58%), Gaps = 5/74 (6%)
Query: 5 VGLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQC---NIGDRVRLDPSR 61
G+VVS+KM K+VVV + L++ + Y RY +R SK AH N C GD V + +R
Sbjct: 31 EGVVVSDKMNKTVVVEREYLYYDRKYERYERRRSKIHAH--NPPCIDVKEGDIVIIGETR 88
Query: 62 PLSKHKHWAVAEIL 75
PLSK K + V +
Sbjct: 89 PLSKTKSFVVLGKV 102
>gnl|CDD|240326 PTZ00241, PTZ00241, 40S ribosomal protein S11; Provisional.
Length = 158
Score = 41.6 bits (98), Expect = 9e-06
Identities = 26/75 (34%), Positives = 40/75 (53%), Gaps = 5/75 (6%)
Query: 6 GLVVSNKMQKSVVVAVDRLFHHKVYNRYVKRTSKFMAHDENNQC---NIGDRVRLDPSRP 62
G+V+S KM++++++ D L + K YNRY KR H + C GD V + RP
Sbjct: 73 GVVISTKMKRTIIIRRDYLHYVKKYNRYEKRHKNIPVH--CSPCFDVKEGDIVVVGQCRP 130
Query: 63 LSKHKHWAVAEILKK 77
LSK + V ++ K
Sbjct: 131 LSKTVRFNVLKVEKN 145
>gnl|CDD|100003 cd05844, GT1_like_7, Glycosyltransferases catalyze the transfer of
sugar moieties from activated donor molecules to
specific acceptor molecules, forming glycosidic bonds.
The acceptor molecule can be a lipid, a protein, a
heterocyclic compound, or another carbohydrate residue.
This group of glycosyltransferases is most closely
related to the previously defined glycosyltransferase
family 1 (GT1). The members of this family may transfer
UDP, ADP, GDP, or CMP linked sugars. The diverse
enzymatic activities among members of this family
reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility.
Length = 367
Score = 26.4 bits (59), Expect = 3.0
Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 48 QCNIGDRVRLDPSRPLSKHKHWAVAEILKKARIYVPPS 85
+G RV ++P H V E++++ARI++ PS
Sbjct: 240 ALGLGGRVTFLGAQP-----HAEVRELMRRARIFLQPS 272
>gnl|CDD|129951 TIGR00873, gnd, 6-phosphogluconate dehydrogenase
(decarboxylating). This model does not specify whether
the cofactor is NADP only (EC 1.1.1.44), NAD only, or
both. The model does not assign an EC number for that
reason [Energy metabolism, Pentose phosphate pathway].
Length = 467
Score = 26.2 bits (58), Expect = 3.4
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 4 VVGLVVSNKMQKSVVV-AVDRLFHHKVYNRYVKRTSKFMA 42
V+GL V M ++ + D F VYNR ++T +F+A
Sbjct: 4 VIGLAV---MGSNLALNMADHGFTVSVYNRTPEKTDEFLA 40
>gnl|CDD|193446 pfam12973, Cupin_7, ChrR Cupin-like domain. Members of this
family are part of the cupin superfamily. This family
includes the transcriptional activator ChrR.
Length = 91
Score = 25.2 bits (56), Expect = 4.3
Identities = 8/21 (38%), Positives = 9/21 (42%)
Query: 55 VRLDPSRPLSKHKHWAVAEIL 75
VR P H+H EIL
Sbjct: 29 VRYAPGSRFPPHRHPGGEEIL 49
>gnl|CDD|237962 PRK15418, PRK15418, transcriptional regulator LsrR; Provisional.
Length = 318
Score = 25.8 bits (57), Expect = 5.2
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 3/35 (8%)
Query: 34 VKRTSKFMAHDENNQCNIGDRV---RLDPSRPLSK 65
V R + F HD Q IG+R+ RL SR L K
Sbjct: 18 VARIAWFYYHDGLTQSEIGERLGLTRLKVSRLLEK 52
>gnl|CDD|233144 TIGR00835, agcS, amino acid carrier protein. The Alanine or
Glycine: Cation Symporter (AGCS) Family (TC 2.A.25)
Members of the AGCS family transport alanine and/or
glycine in symport with Na+ and or H+.
Length = 425
Score = 25.7 bits (57), Expect = 5.4
Identities = 11/21 (52%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 85 SADNAAAAA-VSNTQTEALVS 104
SA AAAAA VS+ + LV
Sbjct: 265 SAPIAAAAAQVSHPVRQGLVQ 285
>gnl|CDD|168237 PRK05772, PRK05772, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 363
Score = 25.5 bits (56), Expect = 6.1
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 1/41 (2%)
Query: 5 VGLVVSNKMQKSVVVAVDR-LFHHKVYNRYVKRTSKFMAHD 44
VGLV+ M +V+V DR L V+N+ +AH+
Sbjct: 238 VGLVMYKDMVNNVMVGADRILRDGHVFNKIGTFKEAVIAHE 278
>gnl|CDD|239010 cd02055, PZI, Protein Z-dependent protease inhibitor (ZPI) is a
member of the serpin superfamily of proteinase
inhibitors (clade A10). ZPI inhibits coagulation factor
Xa , dependent on protein Z (PZ), a vitamin K-dependent
plasma protein. ZPI also inhibits factor XIa in a
process that does not require PZ. In general, SERine
Proteinase INhibitors (serpins) exhibit conformational
polymorphism shifting from native to cleaved, latent,
delta, or polymorphic forms.
Length = 365
Score = 25.3 bits (55), Expect = 6.9
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 58 DPSRPLSKHKHWAVAEILKKARIYVPPSADNAAAAAVS 95
D S L+ KH V+++L+KA I V AAAA S
Sbjct: 293 DLSELLADGKHLQVSQVLQKAVIEVDEKGTEAAAAIGS 330
>gnl|CDD|165207 PHA02876, PHA02876, ankyrin repeat protein; Provisional.
Length = 682
Score = 25.4 bits (55), Expect = 7.7
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 24 LFHHKVYNRYVKRTSKFMAHDENNQCNIGDRVRLDPSRPLSKHKHWAVAEILKKAR 79
L HH V N +K + + CN GDR++ S +H EIL+K+R
Sbjct: 601 LLHHLVNNPIIKEINTWHF------CNYGDRLKTSISLASDRH------EILEKSR 644
>gnl|CDD|215212 PLN02372, PLN02372, violaxanthin de-epoxidase.
Length = 455
Score = 25.2 bits (55), Expect = 9.0
Identities = 14/79 (17%), Positives = 27/79 (34%), Gaps = 6/79 (7%)
Query: 20 AVDRLFHHKVYNRYVKRTSKFMAHDENNQCNIGD-RVRLDPSRPLSKHKHWAVAEILKKA 78
AV + + +S+ + + + + L++ K W+ +LK
Sbjct: 33 AVLAPRRRSMSAISSRTSSRSSRASASLRKSDSEEEFDFVGLSSLNELKEWSRLLLLKAL 92
Query: 79 RI-----YVPPSADNAAAA 92
+ PSAD A A
Sbjct: 93 GLLACALLSVPSADAADAL 111
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.316 0.126 0.355
Gapped
Lambda K H
0.267 0.0804 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,105,139
Number of extensions: 413587
Number of successful extensions: 426
Number of sequences better than 10.0: 1
Number of HSP's gapped: 423
Number of HSP's successfully gapped: 30
Length of query: 106
Length of database: 10,937,602
Length adjustment: 71
Effective length of query: 35
Effective length of database: 7,788,468
Effective search space: 272596380
Effective search space used: 272596380
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.1 bits)